RNA-Seq analysis of isolate- and growth phase-specific differences in the global transcriptomes of enteropathogenic Escherichia coli prototype strains

Autor: Tracy H Hazen, Sean C Daughtery, Amol eShetty, Anup A Mahurkar, Owen eWhite, James B Kaper, David A Rasko

Publikováno v: Frontiers in Microbiology, Vol 6 (2015)

Enteropathogenic Escherichia coli (EPEC) are a leading cause of diarrheal illness among infants in developing countries. E. coli isolates classified as typical EPEC are identified by the presence of the locus of enterocyte effacement (LEE) and the bu

Externí odkaz: https://doaj.org/article/615e6733f4cf49ff9038ba697416dd54

The Neuroscience Multi-Omic Archive: A BRAIN Initiative resource for single-cell transcriptomic and epigenomic data from the mammalian brain

Autor: Seth A. Ament, Ricky S. Adkins, Robert Carter, Elena Chrysostomou, Carlo Colantuoni, Jonathan Crabtree, Heather H. Creasy, Kylee Degatano, Victor Felix, Peter Gandt, Gwenn A. Garden, Michelle Giglio, Brian R. Herb, Farzaneh Khajouei, Elizabeth Kiernan, Carrie McCracken, Kennedy McDaniel, Suvarna Nadendla, Lance Nickel, Dustin Olley, Joshua Orvis, Joseph P. Receveur, Mike Schor, Timothy L. Tickle, Jessica Way, Ronna Hertzano, Anup A. Mahurkar, Owen R White

Scalable technologies to sequence the transcriptomes and epigenomes of single cells are transforming our understanding of cell types and cell states. The Brain Research through Advancing Innovative Neurotechnologies (BRAIN) Initiative Cell Census Net

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::5a1bd8d457735a1de94211b2653575e8
https://doi.org/10.1101/2022.09.08.505285

A Curated Compendium of Transcriptomic Data for the Exploration of Neocortical Development.

Autor: Sonthalia S; Depts. of Neurology and Neuroscience Johns Hopkins School of Medicine, Baltimore, MD, USA.; Dept. of Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, MD, USA., Adkins RS; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA., Orvis J; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA., Li G; Depts. of Neurology and Neuroscience Johns Hopkins School of Medicine, Baltimore, MD, USA.; Dept. of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA., Mato Blanco X; Department of Medicine and Life Sciences, Universitat Pompeu Fabra, Barcelona, Catalonia, Spain.; Hospital del Mar Research Institute, Parc de Recerca Biomèdica de Barcelona, Catalonia, Spain., Casella A; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA.; Medical Scientist Training Program, University of Maryland School of Medicine, Baltimore, MD, USA., Liu J; Depts. of Neurology and Neuroscience Johns Hopkins School of Medicine, Baltimore, MD, USA., Stein-O'Brien G; Depts. of Neurology and Neuroscience Johns Hopkins School of Medicine, Baltimore, MD, USA., Caffo B; Dept. of Biostatistics, Johns Hopkins School of Public Health, Baltimore, MD, USA., Hertzano R; Neurotology Branch, National Institute on Deafness and Other Communication Disorders, National Institutes of Health,Bethesda, MD, USA., Mahurkar A; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA., Gillis J; University of Toronto, Toronto, Canada., Werner J; University of Toronto, Toronto, Canada., Ma S; Department of Neuroscience, Yale University, New Haven CT, USA., Micali N; Department of Neuroscience, Yale University, New Haven CT, USA., Sestan N; Department of Neuroscience, Yale University, New Haven CT, USA., Rakic P; Department of Neuroscience, Yale University, New Haven CT, USA., Santpere G; Hospital del Mar Research Institute, Parc de Recerca Biomèdica de Barcelona, Catalonia, Spain., Ament SA; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA.; Maryland Psychiatric Research Center, Department of Psychiatry, University of Maryland School of Medicine, Baltimore, MD, USA.; UM-MIND Institute for Neuroscience Discovery, University of Maryland School of Medicine, Baltimore, MD, USA., Colantuoni C; Depts. of Neurology and Neuroscience Johns Hopkins School of Medicine, Baltimore, MD, USA.; University of Maryland, Institute for Genome Sciences, Baltimore, MD, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Aug 07. Date of Electronic Publication: 2024 Aug 07.

Peripheral blood transcriptomic profiling of molecular mechanisms commonly regulated by binge drinking and placebo effects.

Autor: Shetty AC; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., Sivinski J; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., Cornell J; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., McCracken C; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., Sadzewicz L; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., Mahurkar A; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA., Wang XQ; Department of Public Health Sciences, University of Virginia, Charlottesville, VA, USA., Colloca L; Department of Pain and Translational Symptom Science, Placebo Beyond Opinions (PBO) Center, University of Maryland School of Nursing, Baltimore, MD, USA., Lin W; Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, MD, USA., Pilli N; Department of Pharmaceutical Sciences, University of Maryland School of Pharmacy, Baltimore, MD, USA., Kane MA; Department of Pharmaceutical Sciences, University of Maryland School of Pharmacy, Baltimore, MD, USA., Seneviratne C; Institute for Genome Sciences, University of Maryland School of Medicine, 670 W. Baltimore Street, Baltimore, MD, 21201, USA. chamindi.seneviratne@nih.gov.; Department of Pharmacology, University of Maryland School of Medicine, Baltimore, MD, USA. chamindi.seneviratne@nih.gov.

Publikováno v: Scientific reports [Sci Rep] 2024 May 10; Vol. 14 (1), pp. 10733. Date of Electronic Publication: 2024 May 10.

Matrix and analysis metadata standards (MAMS) to facilitate harmonization and reproducibility of single-cell data.

Autor: Wang Y; Department of Medicine, Boston University School of Medicine, Boston, MA, USA., Sarfraz I; Department of Medicine, Boston University School of Medicine, Boston, MA, USA., Teh WK; European Bioinformatics Institute, European Molecular Biology Laboratory, Hinxton, Cambridgeshire, UK., Sokolov A; Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, USA., Herb BR; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA., Creasy HH; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA., Virshup I; Department of Computational Health, Helmholtz Munich, Oberschleißheim, Germany., Dries R; Department of Medicine, Boston University School of Medicine, Boston, MA, USA., Degatano K; Data Sciences Platform, Broad Institute, Cambridge, MA, USA., Mahurkar A; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA., Schnell DJ; Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA., Madrigal P; European Bioinformatics Institute, European Molecular Biology Laboratory, Hinxton, Cambridgeshire, UK., Hilton J; Department of Genetics, Stanford University, Stanford, CA, USA., Gehlenborg N; Biomedical Informatics, Harvard Medical School, Boston, MA, USA., Tickle T; Data Sciences Platform, Broad Institute, Cambridge, MA, USA., Campbell JD; Department of Medicine, Boston University School of Medicine, Boston, MA, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2023 Mar 07. Date of Electronic Publication: 2023 Mar 07.